Department of Microbiology, Asan Medical Center, University of Ulsan College of Medicine, Seoul 05505, Korea.
HIV Databases, Theoretical Biology and Biophysics Group, Los Alamos National Laboratory, Los Alamos, NM 87544, USA.
Viruses. 2021 Apr 30;13(5):806. doi: 10.3390/v13050806.
We aimed to investigate whether the sequence length of HIV-1 increases over time. We performed a longitudinal analysis of full-length coding region sequences (FLs) during an HIV-1 outbreak among patients with hemophilia and local controls infected with the Korean subclade B of HIV-1 (KSB). Genes were amplified by overlapping RT-PCR or nested PCR and subjected to direct sequencing. Overall, 141 FLs were sequentially determined over 30 years in 62 KSB-infected patients. Phylogenetic analysis indicated that within KSB, two FLs from plasma donors O and P comprised two clusters, together with 8 and 12 patients with hemophilia, respectively. Signature pattern analysis of the KSB of HIV-1 revealed 91 signature nucleotide residues (1.1%). In total, 48 and 43 signature nucleotides originated from clusters O and P, respectively. Six positions contained 100% specific nucleotide(s) in clusters O and . In-depth FL analysis for over 30 years indicated that the KSB FL significantly increased over time before combination antiretroviral therapy (cART) and decreased with cART. This increase occurred due to the significant increase in and genes, originating in the variable regions of both genes. The increase in sequence length of HIV-1 over time suggests an evolutionary direction.
我们旨在研究 HIV-1 的序列长度是否随时间而增加。我们对感染 HIV-1 韩国 B 亚型（KSB）的血友病患者和当地对照者中的 HIV-1 爆发期间的全长编码区序列（FL）进行了纵向分析。通过重叠 RT-PCR 或嵌套 PCR 扩增基因，并进行直接测序。总体而言，在 30 年内对 62 名 KSB 感染患者的 141 个 FL 进行了连续测定。系统发育分析表明，在 KSB 内，来自血浆供体 O 和 P 的两个 FL 包含两个簇，分别与 8 名和 12 名血友病患者一起。HIV-1 的 KSB 特征性模式分析显示 91 个特征性核苷酸残基（1.1%）。总共，48 个和 43 个特征性核苷酸分别源自簇 O 和 P。在 O 和 P 簇中，有 6 个位置包含 100%特异性核苷酸。对超过 30 年的 FL 进行深入分析表明，在联合抗逆转录病毒疗法（cART）之前，KSB FL 随时间显著增加，并且随着 cART 而减少。这种增加是由于 和 基因的显著增加引起的，这两个基因都起源于这两个基因的可变区域。HIV-1 随时间的序列长度增加表明了一种进化方向。
